Modify cluster options for PBS via dsub

[atongsa]

question_description

• my platform is torque;
• but the HPC use dsub to submite jobs, so i cant submite jobs use nextflow default qsub;
• and also, there is a line in submitting jobs, like below, which is not print by nextflow torque api;

#PBS -j oe
#HSCHED -s hschedd

my solution

• write a submite script and apply resources, and put nextflow run in the script, config nextflow to processor.local
• will this method use HPC resources corretly ?

can I change some where to use dsub and add line #HSCHED -s hschedd in PBS header;

[abhi18av]

Hi @atongsa ,

Perhaps the clusterOptions process directive described here might be of use.

It could be used as shown below

clusterOptions  '#HSCHED -s hschedd'

[atongsa]

Hi @atongsa ,

Perhaps the clusterOptions process directive described here might be of use.

It could be used as shown below

clusterOptions  '#HSCHED -s hschedd'

thanks @abhi18av , what anout dsub, my cluster use dsub not qsub with torque, so i can't submite jobs with nextflow

[abhi18av]

@atongsa , unfortunately I can't comment that one.

Though the docs mention qsub in the executors docs.

[atongsa]

@atongsa , unfortunately I can't comment that one.

Though the docs mention qsub in the executors docs.

thank you @abhi18av